data_8R42 # _model_server_result.job_id r-p0gJxcCmb5y_CY8mor4A _model_server_result.datetime_utc '2024-11-22 09:15:07' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 8r42 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":402}' # _entry.id 8R42 # _exptl.entry_id 8R42 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.068 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-ETHANEDIOL _entity.pdbx_number_of_molecules 10 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 8R42 _cell.length_a 109.48 _cell.length_b 121.89 _cell.length_c 136.69 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8R42 _symmetry.cell_setting ? _symmetry.Int_Tables_number 24 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 F N N ? 4 G N N ? 4 H N N ? 4 I N N ? 4 J N N ? 4 K N N ? 4 L N N ? 4 M N N ? 4 N N N ? 4 R N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n C NAG 1 X 1 NAG X 1 NAG 2 n C NAG 2 X 2 NAG X 2 NAG 2 n D NAG 1 Y 1 NAG Y 1 NAG 2 n D NAG 2 Y 2 NAG Y 2 NAG # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 26 A CYS 26 1_555 A SG CYS 51 A CYS 51 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf2 A SG CYS 300 A CYS 300 1_555 A SG CYS 364 A CYS 364 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 B SG CYS 26 B CYS 26 1_555 B SG CYS 51 B CYS 51 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 B SG CYS 300 B CYS 300 1_555 B SG CYS 364 B CYS 364 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A ND2 ASN 60 A ASN 60 1_555 C C1 NAG . X NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale2 B ND2 ASN 60 B ASN 60 1_555 D C1 NAG . Y NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 C O4 NAG . X NAG 1 1_555 C C1 NAG . X NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale4 D O4 NAG . Y NAG 1 1_555 D C1 NAG . Y NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? # _chem_comp.formula 'C2 H6 O2' _chem_comp.formula_weight 62.068 _chem_comp.id EDO _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-ETHANEDIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'ETHYLENE GLYCOL' # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 O1 EDO sing 83 n n C1 C2 EDO sing 84 n n C1 H11 EDO sing 85 n n C1 H12 EDO sing 86 n n O1 HO1 EDO sing 87 n n C2 O2 EDO sing 88 n n C2 H21 EDO sing 89 n n C2 H22 EDO sing 90 n n O2 HO2 EDO sing 91 n n # _atom_sites.entry_id 8R42 _atom_sites.fract_transf_matrix[1][1] 0.009134 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008204 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.007316 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code E 3 XUC A 1 401 1 XUC 179 . F 4 EDO A 1 402 2 EDO EDO . G 4 EDO A 1 403 4 EDO EDO . H 4 EDO A 1 404 6 EDO EDO . I 4 EDO A 1 405 7 EDO EDO . J 4 EDO A 1 406 8 EDO EDO . K 4 EDO A 1 407 9 EDO EDO . L 4 EDO A 1 408 10 EDO EDO . M 4 EDO A 1 409 14 EDO EDO . N 4 EDO A 1 410 15 EDO EDO . O 5 SO4 A 1 411 1 SO4 SO4 . P 6 CL A 1 412 1 CL CL . Q 3 XUC B 1 401 2 XUC 179 . R 4 EDO B 1 402 3 EDO EDO . S 7 HOH A 1 501 227 HOH HOH . S 7 HOH A 2 502 152 HOH HOH . S 7 HOH A 3 503 229 HOH HOH . S 7 HOH A 4 504 21 HOH HOH . S 7 HOH A 5 505 221 HOH HOH . S 7 HOH A 6 506 64 HOH HOH . S 7 HOH A 7 507 100 HOH HOH . S 7 HOH A 8 508 4 HOH HOH . S 7 HOH A 9 509 15 HOH HOH . S 7 HOH A 10 510 29 HOH HOH . S 7 HOH A 11 511 5 HOH HOH . S 7 HOH A 12 512 126 HOH HOH . S 7 HOH A 13 513 231 HOH HOH . S 7 HOH A 14 514 220 HOH HOH . S 7 HOH A 15 515 88 HOH HOH . S 7 HOH A 16 516 114 HOH HOH . S 7 HOH A 17 517 17 HOH HOH . S 7 HOH A 18 518 97 HOH HOH . S 7 HOH A 19 519 67 HOH HOH . S 7 HOH A 20 520 209 HOH HOH . S 7 HOH A 21 521 131 HOH HOH . S 7 HOH A 22 522 6 HOH HOH . S 7 HOH A 23 523 9 HOH HOH . S 7 HOH A 24 524 228 HOH HOH . S 7 HOH A 25 525 53 HOH HOH . S 7 HOH A 26 526 117 HOH HOH . S 7 HOH A 27 527 19 HOH HOH . S 7 HOH A 28 528 3 HOH HOH . S 7 HOH A 29 529 230 HOH HOH . S 7 HOH A 30 530 28 HOH HOH . S 7 HOH A 31 531 121 HOH HOH . S 7 HOH A 32 532 77 HOH HOH . S 7 HOH A 33 533 106 HOH HOH . S 7 HOH A 34 534 75 HOH HOH . S 7 HOH A 35 535 31 HOH HOH . S 7 HOH A 36 536 42 HOH HOH . S 7 HOH A 37 537 36 HOH HOH . S 7 HOH A 38 538 39 HOH HOH . S 7 HOH A 39 539 218 HOH HOH . S 7 HOH A 40 540 86 HOH HOH . S 7 HOH A 41 541 183 HOH HOH . S 7 HOH A 42 542 10 HOH HOH . S 7 HOH A 43 543 22 HOH HOH . S 7 HOH A 44 544 71 HOH HOH . S 7 HOH A 45 545 60 HOH HOH . S 7 HOH A 46 546 225 HOH HOH . S 7 HOH A 47 547 94 HOH HOH . S 7 HOH A 48 548 33 HOH HOH . S 7 HOH A 49 549 178 HOH HOH . S 7 HOH A 50 550 176 HOH HOH . S 7 HOH A 51 551 68 HOH HOH . S 7 HOH A 52 552 65 HOH HOH . S 7 HOH A 53 553 158 HOH HOH . S 7 HOH A 54 554 74 HOH HOH . S 7 HOH A 55 555 118 HOH HOH . S 7 HOH A 56 556 164 HOH HOH . S 7 HOH A 57 557 232 HOH HOH . S 7 HOH A 58 558 73 HOH HOH . S 7 HOH A 59 559 98 HOH HOH . S 7 HOH A 60 560 177 HOH HOH . S 7 HOH A 61 561 63 HOH HOH . S 7 HOH A 62 562 219 HOH HOH . S 7 HOH A 63 563 85 HOH HOH . S 7 HOH A 64 564 110 HOH HOH . T 7 HOH B 1 501 217 HOH HOH . T 7 HOH B 2 502 215 HOH HOH . T 7 HOH B 3 503 202 HOH HOH . T 7 HOH B 4 504 226 HOH HOH . T 7 HOH B 5 505 96 HOH HOH . T 7 HOH B 6 506 2 HOH HOH . T 7 HOH B 7 507 12 HOH HOH . T 7 HOH B 8 508 223 HOH HOH . T 7 HOH B 9 509 83 HOH HOH . T 7 HOH B 10 510 18 HOH HOH . T 7 HOH B 11 511 200 HOH HOH . T 7 HOH B 12 512 7 HOH HOH . T 7 HOH B 13 513 1 HOH HOH . T 7 HOH B 14 514 11 HOH HOH . T 7 HOH B 15 515 34 HOH HOH . T 7 HOH B 16 516 45 HOH HOH . T 7 HOH B 17 517 139 HOH HOH . T 7 HOH B 18 518 211 HOH HOH . T 7 HOH B 19 519 224 HOH HOH . T 7 HOH B 20 520 81 HOH HOH . T 7 HOH B 21 521 13 HOH HOH . T 7 HOH B 22 522 16 HOH HOH . T 7 HOH B 23 523 82 HOH HOH . T 7 HOH B 24 524 168 HOH HOH . T 7 HOH B 25 525 199 HOH HOH . T 7 HOH B 26 526 180 HOH HOH . T 7 HOH B 27 527 55 HOH HOH . T 7 HOH B 28 528 58 HOH HOH . T 7 HOH B 29 529 61 HOH HOH . T 7 HOH B 30 530 154 HOH HOH . T 7 HOH B 31 531 90 HOH HOH . T 7 HOH B 32 532 93 HOH HOH . T 7 HOH B 33 533 179 HOH HOH . T 7 HOH B 34 534 191 HOH HOH . T 7 HOH B 35 535 62 HOH HOH . T 7 HOH B 36 536 192 HOH HOH . T 7 HOH B 37 537 92 HOH HOH . T 7 HOH B 38 538 80 HOH HOH . T 7 HOH B 39 539 196 HOH HOH . T 7 HOH B 40 540 163 HOH HOH . T 7 HOH B 41 541 79 HOH HOH . T 7 HOH B 42 542 222 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 EDO . . . R 4 -42.812 1.737 35.281 1 85.45 ? C1 EDO 402 B 1 HETATM 2 O O1 EDO . . . R 4 -42.022 2.271 34.214 1 86.72 ? O1 EDO 402 B 1 HETATM 3 C C2 EDO . . . R 4 -42.051 0.592 35.938 1 88.37 ? C2 EDO 402 B 1 HETATM 4 O O2 EDO . . . R 4 -41.078 1.112 36.852 1 87.04 ? O2 EDO 402 B 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 4 #